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RNA速度的范式,创新和生物应用:一个全面的审查
Yajunzi Wang1,2, Jing Li1,2,3, Haoruo Zha1,2
1Wisdom Lake Academy of Pharmacy, Xi'an Jiaotong-Liverpool University, 111 Ren'ai Road, Suzhou Industrial Park, Suzhou, Jiangsu 215123, China.
Briefings in bioinformatics
|July 16, 2025
概括
使用拼接和未拼接RNA的RNA速度分析,可以预测细胞的转变和未来的状态. 本综述对计算型RNA速度模型进行了分类,帮助研究人员进行动态转录组研究.
科学领域:
- 基因组学和计算生物学
- 单细胞转录组学 单细胞转录组学
- 系统生物学 系统生物学
背景情况:
- 单细胞RNA测序 (scRNA-seq) 显示了细胞的异质性.
- 通过分析拼接和未拼接的转录,RNA速度推断出未来的细胞状态.
- 现有的RNA速度计算工具采用了不同的生物物理假设.
研究的目的:
- 为RNA速度计算模型提供结构化的概述.
- 为了分类和比较不同的RNA速度方法.
- 在研究中指导RNA速度工具的选择和应用.
主要方法:
- 将RNA速度模型分类为稳定状态,轨迹和状态外推方法.
- 对模型原理,假设,运动模型和计算策略的系统分析.
- 对代表性的生物应用和新兴扩展的审查.
主要成果:
- 根据它们的转录动力学推断方法来分类RNA速度模型.
- 对比了各种模型的优点和局限性.
- 生物实用性在整个发育和疾病环境中得到证明.
结论:
- RNA速度是理解细胞动态的一个强大的工具.
- 对各种模型的结构化理解有助于有效实施.
- 提供了关于模型选择,应用和解决局限性的建议.
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